Plant Circular RNA Database

Detail information of AT4G14770_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT4G14770_circ_g.1
					
						ID in PlantcircBase
						ath_circ_030958
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 8481974-8484108  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							AT4G14770						
					
						Parent gene annotation
						
							Protein tesmin/TSO1-like CXC 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G14770_circ_g.2 						
					
						Support reads
						7
					
						Tissues
						whole_plant
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						AT4G14770.1:7
AT4G14770.2:7
AT4G14770.3:7

General Information
CircRNA Name	AT4G14770_circ_g.1
ID in PlantcircBase	ath_circ_030958
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 8481974-8484108 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	AT4G14770
Parent gene annotation	Protein tesmin/TSO1-like CXC 2
Parent gene strand	-
Alternative splicing	AT4G14770_circ_g.2
Support reads	7
Tissues	whole_plant
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	AT4G14770.1:7 AT4G14770.2:7 AT4G14770.3:7

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							GGGAAGTGAAATTCAGAGAGCTAAATTGGTTAGGATTTGGTATGGATCTGACTGGTCTTATTGG
AGACAAACTGTTTATGTAATTGAACACTGGAGAATCctgtaaatcggcgttggtgtcgtaggta
gagcagaactcatgtcctttctcattaaaacctcagtgttttgttggcttttggctgttctgct
tttctcag

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 1589
Transcript exons: 8481974-8482121,8482214-8482280,8482377-8482472,8482559-
8482739,8482825-8482896,8482983-8483341,8483443-8484108
CTGTAAATCGGCGTTGGTGTCGTAGGTAGAGCAGAACTCATGTCCTTTCTCATTAAAACCTCAG
TGTTTTGTTGGCTTTTGGCTGTTCTGCTTTTCTCAGATGTTTCATTTTCCTCTTCTTGTTCGGC
TTCCATGTCAATGGAAGACCCATCTTTCCGGCCGAATGCGTTCTTACATCCTTCACATCTACAG
TTTATGGAACAGCCCACACCACCCTGATAGCATTCACAGTATTTCTTCAGACAGTTTGATTTCT
TGCAGTTGCAGCCACGTTTATGGCGCGCAGAAGCTGGAGTTTTGCTTGCATCATCCCCGGTTTC
TTGAACTGAGTCAGAGTTCCTAATGACTTTAGGAGCAAATGCAAGTGGATTCCGAGATTCAATC
TGTTTGCGAGTCGCCAGGACAACGTCTTCATGGATAGGTTTATTGAAGCAGTCTATACATGAAC
ATGGCTCTATGCAATAGACTCCAGCAGCAAAGCATTCACAGTAAAGTTTCAAACACTTGGACTT
TTTGCAGTTGCATCGCTTACACGACTCGCCTTCTCCAGAATCCAACTTAACCCTCTTCTTCTTA
GGGCTGCTCAAATTTAACTCTTGCAAAGCTGGTTCAACAGGAACATCTTGATCTGCATCTTCCC
GGATTTCATTTTCTGTTTGGTCCAAAGAATCTTGCAGTGTAGAGATGGACCTTTGTAAACCCAC
TTGTATATTCGCAGAACATGAGTAATCTTGAGTAACATTGGTTTTACAGTCCTTTGAAGACATT
AAAATGGCATTTAGATGAAGACCAATACTCGGTACAACACATCTCGAAGAGGATTCACAAGCCG
CGGTGTTATTCTCACTTGATGTTTGCTTATTCCCGGGCATCTCAAAGTCAAGACAACGTCTTCT
TATACCACGGTGCAAGAGTGAAACAGCCTCATAAGGAATCGCATTCGCGGACTCCGGTTCCTTG
TTTGAATCGTGCTGCATTGTTTGCTTCTCCACACCATTTCTAAAACGTGCTTCAGAGTTTGATG
CTCTCTGCATCATAAAGCATCTAAAAGCCTCAGAAGCATCAGGTGAGTCAAAGATTAACAGCTC
AGAAGCATCTGCAATCAAACTTTCCCAATCCGGAGTTTCAGTTTTCCCCTGAACATTATCATGC
ATCTTCTGCAGCTCCATTCCATTATCCTCACAAGAACCATCCTCTCCTCGAGTAGGAGCGTAAG
GAACAAGCGAAAGATCAGTAGTATTTCCACCACACGGTGAAGCAACGGAATCATCAAGATTCGT
TTCAACTGAAGCTTCTTCTCGCATGCAATCATCTATGTTAAGACCTTTTGTATCTTCTCCTTCT
GCTGGAACTTCTTCATGAGAAGTAGACTCGTCTTCTTGAGATTCAACGGAATTGGTAGGATCAG
AAGAAGAAGAGTTGTGAGTTTTGAAGAATCTGGATTCTTTGTGAGAAGAAGTTAGGTGAGGTGA
AGTGAAAACAGAGGGAGGGGAAGTGAAATTCAGAGAGCTAAATTGGTTAGGATTTGGTATGGAT
CTGACTGGTCTTATTGGAGACAAACTGTTTATGTAATTGAACACTGGAGAATC
						
					

						Genomic sequence
						
							CTGTAAATCGGCGTTGGTGTCGTAGGTAGAGCAGAACTCATGTCCTTTCTCATTAAAACCTCAG
TGTTTTGTTGGCTTTTGGCTGTTCTGCTTTTCTCAGATGTTTCATTTTCCTCTTCTTGTTCGGC
TTCCATGTCAATGGAAGACCCTGAGATATTCATTAAGCAGAATCAGAATCAGAAAGAGAATGTG
AGGTTATTAGTAATGAAAAATTGAAAACTCAGAAGCAGAGAAGCTAACCATCTTTCCGGCCGAA
TGCGTTCTTACATCCTTCACATCTACAGTTTATGGAACAGCCCACACCACCCTTTAAAGAAACA
ACATACCAAATTACCGGAATCAGGCCATAGGAAGTTAATCACATGGAACCATTGAAAGCACATC
GATGAGGGAAAATAAAAACCTGATAGCATTCACAGTATTTCTTCAGACAGTTTGATTTCTTGCA
GTTGCAGCCACGTTTATGGCGCGCAGAAGCTGGAGTTTTGCTTGCATCATCCTGTGTGTCATTA
CAATATTATTATAACTTCAAGCAAGATAGATGGATGATGCAGAGGAATCAAAGGACGGGGAAAA
GAATCCTACCCCGGTTTCTTGAACTGAGTCAGAGTTCCTAATGACTTTAGGAGCAAATGCAAGT
GGATTCCGAGATTCAATCTGTTTGCGAGTCGCCAGGACAACGTCTTCATGGATAGGTTTATTGA
AGCAGTCTATACATGAACATGGCTCTATGCAATAGACTCCAGCAGCAAAGCATTCACAGTAACT
GCACCACACAAACATCAGAAGACTCAAAACACCAAACTTTTTTGAAGGGCCAAAGATCAAAAAT
GTGGAACTTTGGAGCTTACAGTTTCAAACACTTGGACTTTTTGCAGTTGCATCGCTTACACGAC
TCGCCTTCTCCAGAATCCAACTTAACCCTGTGTGTTTATCATGCCAACAGTTATTAAGACAGAG
ATAAAAGGACTCTACACAGAGGAGTTACTCTTAAAGGAAAAAATCTTACCTCTTCTTCTTAGGG
CTGCTCAAATTTAACTCTTGCAAAGCTGGTTCAACAGGAACATCTTGATCTGCATCTTCCCGGA
TTTCATTTTCTGTTTGGTCCAAAGAATCTTGCAGTGTAGAGATGGACCTTTGTAAACCCACTTG
TATATTCGCAGAACATGAGTAATCTTGAGTAACATTGGTTTTACAGTCCTTTGAAGACATTAAA
ATGGCATTTAGATGAAGACCAATACTCGGTACAACACATCTCGAAGAGGATTCACAAGCCGCGG
TGTTATTCTCACTTGATGTTTGCTTATTCCCGGGCATCTCAAAGTCAAGACAACGTCTTCTTAT
ACCACGGTGCAAGAGTGAAACAGCCTATCACACAAAACAAAAACCAAGAAGACAACTCTTTTAG
AGACAGTAAGTATTTATAAAACACTGAAGATAACTACTTGTGATATTACTCCTGAGTTTACCTC
ATAAGGAATCGCATTCGCGGACTCCGGTTCCTTGTTTGAATCGTGCTGCATTGTTTGCTTCTCC
ACACCATTTCTAAAACGTGCTTCAGAGTTTGATGCTCTCTGCATCATAAAGCATCTAAAAGCCT
CAGAAGCATCAGGTGAGTCAAAGATTAACAGCTCAGAAGCATCTGCAATCAAACTTTCCCAATC
CGGAGTTTCAGTTTTCCCCTGAACATTATCATGCATCTTCTGCAGCTCCATTCCATTATCCTCA
CAAGAACCATCCTCTCCTCGAGTAGGAGCGTAAGGAACAAGCGAAAGATCAGTAGTATTTCCAC
CACACGGTGAAGCAACGGAATCATCAAGATTCGTTTCAACTGAAGCTTCTTCTCGCATGCAATC
ATCTATGTTAAGACCTTTTGTATCTTCTCCTTCTGCTGGAACTTCTTCATGAGAAGTAGACTCG
TCTTCTTGAGATTCAACGGAATTGGTAGGATCAGAAGAAGAAGAGTTGTGAGTTTTGAAGAATC
TGGATTCTTTGTGAGAAGAAGTTAGGTGAGGTGAAGTGAAAACAGAGGGAGGGGAAGTGAAATT
CAGAGAGCTAAATTGGTTAGGATTTGGTATGGATCTGACTGGTCTTATTGGAGACAAACTGTTT
ATGTAATTGAACACTGGAGAATC
						
					

			
		

Sequences
Splice junction sequence	GGGAAGTGAAATTCAGAGAGCTAAATTGGTTAGGATTTGGTATGGATCTGACTGGTCTTATTGG AGACAAACTGTTTATGTAATTGAACACTGGAGAATCctgtaaatcggcgttggtgtcgtaggta gagcagaactcatgtcctttctcattaaaacctcagtgttttgttggcttttggctgttctgct tttctcag
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 1589 Transcript exons: 8481974-8482121,8482214-8482280,8482377-8482472,8482559- 8482739,8482825-8482896,8482983-8483341,8483443-8484108 CTGTAAATCGGCGTTGGTGTCGTAGGTAGAGCAGAACTCATGTCCTTTCTCATTAAAACCTCAG TGTTTTGTTGGCTTTTGGCTGTTCTGCTTTTCTCAGATGTTTCATTTTCCTCTTCTTGTTCGGC TTCCATGTCAATGGAAGACCCATCTTTCCGGCCGAATGCGTTCTTACATCCTTCACATCTACAG TTTATGGAACAGCCCACACCACCCTGATAGCATTCACAGTATTTCTTCAGACAGTTTGATTTCT TGCAGTTGCAGCCACGTTTATGGCGCGCAGAAGCTGGAGTTTTGCTTGCATCATCCCCGGTTTC TTGAACTGAGTCAGAGTTCCTAATGACTTTAGGAGCAAATGCAAGTGGATTCCGAGATTCAATC TGTTTGCGAGTCGCCAGGACAACGTCTTCATGGATAGGTTTATTGAAGCAGTCTATACATGAAC ATGGCTCTATGCAATAGACTCCAGCAGCAAAGCATTCACAGTAAAGTTTCAAACACTTGGACTT TTTGCAGTTGCATCGCTTACACGACTCGCCTTCTCCAGAATCCAACTTAACCCTCTTCTTCTTA GGGCTGCTCAAATTTAACTCTTGCAAAGCTGGTTCAACAGGAACATCTTGATCTGCATCTTCCC GGATTTCATTTTCTGTTTGGTCCAAAGAATCTTGCAGTGTAGAGATGGACCTTTGTAAACCCAC TTGTATATTCGCAGAACATGAGTAATCTTGAGTAACATTGGTTTTACAGTCCTTTGAAGACATT AAAATGGCATTTAGATGAAGACCAATACTCGGTACAACACATCTCGAAGAGGATTCACAAGCCG CGGTGTTATTCTCACTTGATGTTTGCTTATTCCCGGGCATCTCAAAGTCAAGACAACGTCTTCT TATACCACGGTGCAAGAGTGAAACAGCCTCATAAGGAATCGCATTCGCGGACTCCGGTTCCTTG TTTGAATCGTGCTGCATTGTTTGCTTCTCCACACCATTTCTAAAACGTGCTTCAGAGTTTGATG CTCTCTGCATCATAAAGCATCTAAAAGCCTCAGAAGCATCAGGTGAGTCAAAGATTAACAGCTC AGAAGCATCTGCAATCAAACTTTCCCAATCCGGAGTTTCAGTTTTCCCCTGAACATTATCATGC ATCTTCTGCAGCTCCATTCCATTATCCTCACAAGAACCATCCTCTCCTCGAGTAGGAGCGTAAG GAACAAGCGAAAGATCAGTAGTATTTCCACCACACGGTGAAGCAACGGAATCATCAAGATTCGT TTCAACTGAAGCTTCTTCTCGCATGCAATCATCTATGTTAAGACCTTTTGTATCTTCTCCTTCT GCTGGAACTTCTTCATGAGAAGTAGACTCGTCTTCTTGAGATTCAACGGAATTGGTAGGATCAG AAGAAGAAGAGTTGTGAGTTTTGAAGAATCTGGATTCTTTGTGAGAAGAAGTTAGGTGAGGTGA AGTGAAAACAGAGGGAGGGGAAGTGAAATTCAGAGAGCTAAATTGGTTAGGATTTGGTATGGAT CTGACTGGTCTTATTGGAGACAAACTGTTTATGTAATTGAACACTGGAGAATC
Genomic sequence	CTGTAAATCGGCGTTGGTGTCGTAGGTAGAGCAGAACTCATGTCCTTTCTCATTAAAACCTCAG TGTTTTGTTGGCTTTTGGCTGTTCTGCTTTTCTCAGATGTTTCATTTTCCTCTTCTTGTTCGGC TTCCATGTCAATGGAAGACCCTGAGATATTCATTAAGCAGAATCAGAATCAGAAAGAGAATGTG AGGTTATTAGTAATGAAAAATTGAAAACTCAGAAGCAGAGAAGCTAACCATCTTTCCGGCCGAA TGCGTTCTTACATCCTTCACATCTACAGTTTATGGAACAGCCCACACCACCCTTTAAAGAAACA ACATACCAAATTACCGGAATCAGGCCATAGGAAGTTAATCACATGGAACCATTGAAAGCACATC GATGAGGGAAAATAAAAACCTGATAGCATTCACAGTATTTCTTCAGACAGTTTGATTTCTTGCA GTTGCAGCCACGTTTATGGCGCGCAGAAGCTGGAGTTTTGCTTGCATCATCCTGTGTGTCATTA CAATATTATTATAACTTCAAGCAAGATAGATGGATGATGCAGAGGAATCAAAGGACGGGGAAAA GAATCCTACCCCGGTTTCTTGAACTGAGTCAGAGTTCCTAATGACTTTAGGAGCAAATGCAAGT GGATTCCGAGATTCAATCTGTTTGCGAGTCGCCAGGACAACGTCTTCATGGATAGGTTTATTGA AGCAGTCTATACATGAACATGGCTCTATGCAATAGACTCCAGCAGCAAAGCATTCACAGTAACT GCACCACACAAACATCAGAAGACTCAAAACACCAAACTTTTTTGAAGGGCCAAAGATCAAAAAT GTGGAACTTTGGAGCTTACAGTTTCAAACACTTGGACTTTTTGCAGTTGCATCGCTTACACGAC TCGCCTTCTCCAGAATCCAACTTAACCCTGTGTGTTTATCATGCCAACAGTTATTAAGACAGAG ATAAAAGGACTCTACACAGAGGAGTTACTCTTAAAGGAAAAAATCTTACCTCTTCTTCTTAGGG CTGCTCAAATTTAACTCTTGCAAAGCTGGTTCAACAGGAACATCTTGATCTGCATCTTCCCGGA TTTCATTTTCTGTTTGGTCCAAAGAATCTTGCAGTGTAGAGATGGACCTTTGTAAACCCACTTG TATATTCGCAGAACATGAGTAATCTTGAGTAACATTGGTTTTACAGTCCTTTGAAGACATTAAA ATGGCATTTAGATGAAGACCAATACTCGGTACAACACATCTCGAAGAGGATTCACAAGCCGCGG TGTTATTCTCACTTGATGTTTGCTTATTCCCGGGCATCTCAAAGTCAAGACAACGTCTTCTTAT ACCACGGTGCAAGAGTGAAACAGCCTATCACACAAAACAAAAACCAAGAAGACAACTCTTTTAG AGACAGTAAGTATTTATAAAACACTGAAGATAACTACTTGTGATATTACTCCTGAGTTTACCTC ATAAGGAATCGCATTCGCGGACTCCGGTTCCTTGTTTGAATCGTGCTGCATTGTTTGCTTCTCC ACACCATTTCTAAAACGTGCTTCAGAGTTTGATGCTCTCTGCATCATAAAGCATCTAAAAGCCT CAGAAGCATCAGGTGAGTCAAAGATTAACAGCTCAGAAGCATCTGCAATCAAACTTTCCCAATC CGGAGTTTCAGTTTTCCCCTGAACATTATCATGCATCTTCTGCAGCTCCATTCCATTATCCTCA CAAGAACCATCCTCTCCTCGAGTAGGAGCGTAAGGAACAAGCGAAAGATCAGTAGTATTTCCAC CACACGGTGAAGCAACGGAATCATCAAGATTCGTTTCAACTGAAGCTTCTTCTCGCATGCAATC ATCTATGTTAAGACCTTTTGTATCTTCTCCTTCTGCTGGAACTTCTTCATGAGAAGTAGACTCG TCTTCTTGAGATTCAACGGAATTGGTAGGATCAGAAGAAGAAGAGTTGTGAGTTTTGAAGAATC TGGATTCTTTGTGAGAAGAAGTTAGGTGAGGTGAAGTGAAAACAGAGGGAGGGGAAGTGAAATT CAGAGAGCTAAATTGGTTAGGATTTGGTATGGATCTGACTGGTCTTATTGGAGACAAACTGTTT ATGTAATTGAACACTGGAGAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.230573223

Conservation Information
Conserved circRNAs	NA
PMCS	0.230573223

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT4G14770_circ_g.1

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